[modeller_usage] problem with GluP ACe CT3 patch

hello,

I am trying to patch a protonated glu as well as ACE and CT3. Most of the documentation on patches is for DISU. As for ACE or CT3 (which is what I tried first) I used:

class mymodel(automodel): def special_patches(self, aln): self.patch(residue_type='CT3', residues=(self.residues['473:A']))

a = mymodel(env, alnfile = 'all.pir', knowns = ('3ob6_A','3ob6_B'), sequence = 'Can1_E184H')

a.starting_model= 1 a.ending_model = 1

I got the following error:

patch___482E> Patching residue identifier not found: CT3

Same thing for ACE. I also tried with allhmodel but it fails as well.

Another question for GLUP patching in no hydrogen models how can one be sure that one got indeed GLUP?

Thanks in advance for your help,

Martine.

-------------------------------------------- Martine Prévost Structure et Fonction des Membranes Biologiques CP 206/2 Université Libre de Bruxelles Bld du Triomphe B-1050 Bruxelles Belgium Phone : 32-2-650 2049 Fax : 32-2-650 5382 E-mail: mprevost@ulb.ac.be --------------------------------------------